[Bioperl-l] About bioperl issue: get string

Hsueh lovebaby39 at gmail.com
Wed Dec 23 05:48:55 EST 2009

Dear all

I use "$hit_u->name" to get "gnl|uv|Z46234.1:664-3444", but I don't know how 
to get "P.pastoris DNA for pPIC9K expression vector".

    while (my $result_u =  $blast_report_u-> next_result ) {
        while (my $hit_u = $result_u->next_hit()){
            while (my $hsp_u = $hit_u->next_hsp()){

I will appreciate if you could tell me how to do it.

P.S. How can I download the BioPerl's Manual? (BioPerl's Manual download 

The flow is BLAST result:
BLASTN 2.2.16 [Mar-25-2007]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.
         (458 letters)

Database: UniVec (build 4.0)
           2416 sequences; 597,480 total letters
                                        Score    E
Sequences producing significant alignments: 
(bits)     Value

gnl|uv|Z46234.1:664-3444 P.pastoris DNA for pPIC9K expression ve... 
26   3.1
gnl|uv|U89673.1:863-1946 Cloning vector pIRES1neo 
26   3.1
gnl|uv|U13843.1:1887-9923 pBPV cloning vector 
26   3.1

>gnl|uv|Z46234.1:664-3444 P.pastoris DNA for pPIC9K expression vector
          Length = 2781

 Score = 26.3 bits (13), Expect = 3.1
 Identities = 13/13 (100%)
 Strand = Plus / Plus

Query: 352  tactaccgccatt 364
Sbjct: 2209 tactaccgccatt 2221

Reginald Hsueh 

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